Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2860 |
| PDBID: | 6T9D |
| Chains: | AB_D |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.90 |
| Reference: | 10.1038/s41467-021-20949-3 |
| Antibody | |
| Antibody: | Duta Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Vascular endothelial growth factor A 121 |
| Antigen mutation: | No |
| Durg Target: | P15692 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >6T9D_A|Chain A[auth AAA], E[auth HHH]|VP mat DutaFab VH chain|Homo sapiens (9606) DLQLVESGGGLVKPGGSLRLSCAADGWWFGYTDMSWVRQAPGKGLEWVGSISYKGGSTYYNTKFIGRFTISRDDDTNTLYLQMNSLRAEDTAVYYCARDDGYFDTWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYICNVNHKPSNTKVDKKVEPKSCT |
Light Chain: B
Mutation: NULL
| >6T9D_B|Chain B[auth BBB], F[auth LLL]|VP mat DutaFab VL chain|Homo sapiens (9606) AIQMTQSPSSLSASVGDRVTITCHGSYWLSNYLAWYQQKPGKAPKLLIYDGKEREHGVPSRFSGSGSHEDYTLTISSLQPEDFATYYCQQYRYHPYTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE |
Antigen
Chain: D
Mutation: NULL
| >6T9D_D|Chain C[auth CCC], D[auth DDD]|Vascular endothelial growth factor A|Homo sapiens (9606) APMAEGGGQNHHEVVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQHIGEMSFLQHNKCECRPKKDRARQENCDKPRR |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| A: SER50 GLY56 SER57 THR58 TYR59 THR62 LYS63 ILE65 GLY66 ARG67 ASP99 GLY101 B: ALA1 ILE2 SER26 TYR27 TRP28 TYR32 TYR91 ARG92 TYR93 HIS94 TYR96 D: MET18 TYR21 GLN22 ARG23 TYR25 HIS27 PRO28 ILE29 GLU30 PRO53 MET55 THR71 GLU72 ASN75 ILE76 MET78 GLN98 ASN100 LYS101 CYS102 GLU103 ARG105 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
